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Simple comparative benchmarks

Open ivirshup opened this issue 2 years ago • 1 comments

We should have a simple comparative benchmark (with prose) comparing using AnnData and our on disk format to alternative structures.

Initial measurements could look at:

  • IO time
  • IO memory
  • On disk size
  • In memory size

Alternatives to compare against include:

  • Serialized R object (SeuratObject, maybe also SingleCellExperiment)
  • Loom

Variables to consider here include file format (hdf5 vs zarr), chunking, and compression.

ivirshup avatar Jun 07 '22 08:06 ivirshup